Speedup due to the HCP approximation. Even with the occurrence of divergent branches, speedup due to the HCP approximation is positive on the GPU. This alludes to the fact there is some aspect with amortizes the cost of the introduction of these divergent branches. Speedup is maximum for the largest structure, i.e., virus capsid. Baseline: Corresponding implementation on each platform without the use of HCP approximation.
Daga and Feng BMC Bioinformatics 2012 13(Suppl 5):S4 doi:10.1186/1471-2105-13-S5-S4